Complete genomic sequence analyses of Apple Stem Pitting Virus isolates from China

Area of Science:

• Plant Virology
• Genomics
• Molecular Biology

Background:

• Apple stem pitting Україні (ASPV) is a significant pathogen affecting fruit trees.
• Understanding the genetic diversity of ASPV is crucial for disease management.

Purpose of the Study:

• To determine the complete genomic sequences of two Chinese ASPV isolates, KL1 and KL9.
• To analyze the genetic variation and phylogenetic relationships among ASPV isolates.

Main Methods:

• Whole-genome sequencing of ASPV isolates KL1 and KL9 using overlapping cDNA clones.
• Bioinformatic analysis including nucleotide and amino acid sequence alignment.
• Phylogenetic analysis based on coat protein genes and nucleotide sequence diversity.

Main Results:

• The complete genomes of ASPV isolates KL1 and KL9 were sequenced (9265 nucleotides).
• Identities between KL1 and KL9 were 92.5% at the nucleotide level, with variations in specific ORFs.
• Phylogenetic analysis revealed three distinct groups of ASPV, with apple and pear isolates clustering separately.
• No significant geographic differentiation was observed among ASPV isolates based on nucleotide diversity.

Conclusions:

• The genomic sequences of Chinese ASPV isolates KL1 and KL9 provide insights into their genetic makeup.
• ASPV isolates exhibit genetic variability, particularly in coat protein genes, influencing phylogenetic clustering.
• The lack of geographic differentiation suggests widespread distribution and potential for long-distance dispersal of ASPV.